A Database of Drosophila Genes & Genomes

FB2008_07, released August 8, 2008
 

Gene Dmel\NPC2

General Information
SymbolDmel\NPC2SpeciesD. melanogaster
NameNiemann-Pick Type C-2Annotation symbolCG7291
Feature typeprotein_coding_geneFlyBase IDFBgn0031381
Created / Updated2003-12-01/2003-12-01
Genomic Location
Chromosome (arm)2LRecombination map
Cytogenetic map22B8-22B8Sequence location2L:1,988,291..1,988,949 [+]
Map ( GBrowse ) detailed view
hide Summary Information
Automatically generated summary

See sections below for more information
The gene Niemann-Pick Type C-2 is referred to in FlyBase by the symbol NPC2 (CG7291, FBgn0031381). It has the cytological map location 22B8. Its sequence location is 2L:1988291..1988949. Its molecular function is unknown. The biological processes in which it is involved are not known. One allele is reported. No phenotypic data is available. It has one annotated transcript and one annotated polypeptide.
External Summaries

hide Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
22B8-22B8  
Limits computationally determined from genome sequence between P{lacW}CG17646k11021 and P{EP}EP366  
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Molecular Map Data
Gene Order (in direction of increasing cytology)
References
Gene Order (overall orientation not stated)
References
hide Gene Model & Products
Please see the GBrowse view of Dmel\NPC2 for information on other features
detailed view FBtr0077868 FBtr0077867 FBtr0100359 FBtr0077816 FBpp0077537 FBpp0077536 FBpp0077492 FBti0023207 FBti0056200 FBti0039760 FBti0023455 FBti0025774 FBti0055453
Comments on Gene Model
hide Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Associated CDS (aa)
NPC2-RA
FBtr0077816
 NM_134793
  659
  148
Additional Transcript Data & Comments
Reported size (kB)
Comments
External Data
Crossreferences
hide Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kD)
Length (aa)
Theoretical pI
RefSeq ID
GenBank protein
NPC2-PA  
FBpp0077492  
16.0  
148  
4.95  
  NP_608637
  AAF51319
Additional Polypeptide Data & Comments
Reported size (kD)
Comments
External Data
Linkouts
PANTHER - Protein classification by function, families, and pathways
•
Crossreferences
InterPro domains - A database of protein families, domains, and functional sites
•
MD-2-related lipid-recognition (IPR003172)
Immunoglobulin E-set (IPR014756)
hide Sequences Consistent with the Gene Model
DDBJ /
EMBL /
GenBank
DNA sequence
Protein sequence
Name
AA950384
 
AA952012
 
AE003584
AAF51319
 
AI109245
 
AI292997
 
AI293512
 
AI295274
 
AI389311
 
AI402759
 
AI403158
 
AY118810
AAM50670
 
BI171355
 
BI173276
 
BI610011
 
BI615358
 
BI615496
 
BI621812
 
BT001844
AAN71605
 
CK662502
 
CO192529
 
CO272465
 
CO307404
 
CO309140
 
CO329937
 
CO333088
 
EC060909
 
EC204900
 
EC212206
 
EC215137
 
EC216686
 
EC232361
 
EC240967
 
EL873968
 
EL874217
 
 
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL
    Maps to
    Does NOT map to
    Identified with
    (Zou et al., 2000)
    (BDGP Project Members, 2000-)
    hide Mapped Features & Mutations
    Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here
    Type
    Symbol & Location
    Additional Notes
    References
    hide External Data
    Linkouts
    DEDB - Drosophila exon database: splicing graphs
    •
    Crossreferences
    hide Expression Data
    FlyBase-Curated Data
    Transcript and
    Protein data     		Please see the FlyBase Gene Expression Report for details of gene expression from the literature.
    hide Summary of Transcript Expression
    Stage
    Tissue/Position
    Reference
    Marker for
      Subcellular Localization
      CV Term
      hide Summary of Polypeptide Expression
      Stage
      Tissue/Position
      Reference
      Marker for
        Subcellular Localization
        CV Term
        hide Microarray Data
        Developmental timecourse, Costello et al., 2008 (Original data from Arbeitman et al., 2002)
        Untitled Document detailed view FBtr0077868 FBtr0077867 FBtr0100359 FBtr0077816
        AI109245
        hide External Data & Images
        Linkouts
        FLIGHT - Cell culture data for RNAi and other high-throughput technologies
        •
        FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
        •
        GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies
        •
        hide Alleles & Phenotypes
        hide Summary of Allele Phenotypes
        Phenotype manifest in
        Allele
        hide Classical Alleles ( 0 )
        For All Classical Alleles Show

        Allele of NPC2ClassMutagenStocksKnown lesion
        hide Alleles Carried on Transgenic Constructs ( 1 )
        For All Alleles Carried on Transgenic Constructs Show

        Allele of NPC2ClassMutagenStocksKnown lesion
        NPC2GD50752 Yes
        hide Aneuploid Aberrations
        Useful deficiency
         
        Disrupted in
        (Ryder, 2004.4.26)
        (Ryder, 2004.4.26)
        hide Transgenic Constructs & Insertions
        Transgenic Constructs
        Type of construct
        Name
        Expression data
        UAS construct
        P{GD5075}
        NA
        Insertions
        Type of insertions
        Name
        Expression data
        miscellaneous insertions
        P{SUPor-P}KG05307
        NA
        insertion of enhancer trap
        P{lacW}l(2)SH1929SH1929
        No
        hide Related Comments
        Please look at the allele reports for the complete phenotype data
        hide Gene Ontology: Function, Process & Cellular Component ( 1 )
        hide Molecular Function
        CV term
        Evidence
        References
        hide Biological Process
        CV term
        Evidence
        References
        hide Cellular Component
        CV term
        Evidence
        References
        extracellular region
        non-traceable author statement
        (Swiss-Prot Project Members, 2000.10.1)
        hide Sequence Ontology: Class of Gene
        protein_coding_gene
         
        nuclear_gene
         
        hide Interactions & Pathways
        hide Summary of Genetic Interactions
        Interacts with
        Please look at the allele data for full details of the genetic interactions
        NPC2 allele
        Gene
        References
        hide External Data
        Linkouts
        BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions
        •
        hide Orthologs
        Genome-wide drosophilid orthologs
        Curated drosophilid orthologs
         
        Linkouts
        InParanoid orthologs - Eukaryotic orthologs
        •
        hide Functional Complementation between Species
        hide Inter-Species Misexpression Data
        Produces phenotype in
        Produces NO phenotype in
        hide Stocks & Reagents
        hide Stocks Listed in FlyBase ( 3 )
        VDRC
        v30722
        w1118; P{GD5075}v30722
        v30725
        w1118; P{GD5075}v30725
        Bloomington
        14202
        y1 w67c23; P{SUPor-P}KG05307
        hide Genomic Clones ( 1 )
        hide cDNA Clones ( 24 )
        Please Note
        This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.
        cDNA Clones, Fully Sequenced
        BDGP DGC clones
        Other clones
        cDNA Clones, End Sequenced (ESTs)
        BDGP DGC clones
        Other clones
        hide RNAi & Array Information
        Affy Oligo
        Linkouts
        DRSC - RNAi screening (Harvard): high-throughput cell culture data and design
        •
        GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data
        •
        hide Antibody Information
        hide Other Information
        hide Discoverer
        hide Etymology
        hide Identification
        hide Position Effect Variegation Data
        hide Relationship to Other Genes
        Source for database identity of
        Source for identity of: NPC2 CG7291
        (Huang and Scott, 2004)
        Source for database merge of
        Source for merge of: NPC2 BEST:GH08376
        (Rana, 2004.7.8)
        Source for merge of: CG7291 BcDNA:RH53228 Source for merge of: CG7291 BcDNA:GH22047 Source for merge of CG7291 BcDNA:RH53228 was a shared cDNA (date:030728). Source for merge of CG7291 BcDNA:GH22047 was a shared cDNA (date:030728).
        (FlyBase, 1996-)
        Additional comments
        hide Comments About Role
        hide Comments About Molecular Function
        hide Other Comments
        hide External Crossreferences & Linkouts
        Sequence Crossreferences
        RefSeq (Transcripts)
        •
        RefSeq (Proteins)
        •
        DDBJ / EMBL / GenBank
        •
        UniProtKB/Swiss-Prot
        •
        Other Crossreferences
        InterPro domains - A database of protein families, domains, and functional sites
        •
        MD-2-related lipid-recognition (IPR003172)
        Immunoglobulin E-set (IPR014756)
        Linkouts
        BioGRID - Interaction data, including yeast 2-hybrid and genetic interactions
        •
        DEDB - Drosophila exon database: splicing graphs
        •
        DRSC - RNAi screening (Harvard): high-throughput cell culture data and design
        •
        FLIGHT - Cell culture data for RNAi and other high-throughput technologies
        •
        FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
        •
        FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans
        •
        GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies
        •
        GenomeRNAi - RNAi phenotypes (Heidelberg): high-throughput cell culture data
        •
        InParanoid orthologs - Eukaryotic orthologs
        •
        Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
        •
        PANTHER - Protein classification by function, families, and pathways
        •
        University of Chicago Dev. Expression
        •
        hide Synonyms & Secondary IDs ( 10 )
        Reported As
        Symbol Synonym
        BcDNA:GH22047
         
        BcDNA:RH53228
         
        BEST:GH08376
         
        CG7291
        (Rana, 2004.7.8, Inlow and Restifo, 2004, )
        CT22505
        (Ceriani et al., 2002)
        DmML3
        (Inohara, 2002)
        dnpc2a
        (Huang et al., 2006)
        NPC2
         
        Name Synonym
        Epididymal secretory protein
        (Kang et al., 2002)
        Niemann-Pick Type C-2
        (Huang and Scott, 2004)
        Secondary FlyBase IDs
        • FBgn0043830
        • FBgn0063229
        • FBgn0064798
        hide References ( 18 )
        Research paper
        Inlow and Restifo, 2004, Genetics 166(2): 835--881
        Molecular and comparative genetics of mental retardation. [FBrf0174714]
        Ceriani et al., 2002, J. Neurosci. 22(21): 9305--9319
        Genome-wide expression analysis in Drosophila reveals genes controlling circadian behavior. [FBrf0152147]
        Kang et al., 2002, Proc. Natl. Acad. Sci. USA 99(2): 838--843
        Life extension in Drosophila by feeding a drug. [FBrf0145208]
        Zou et al., 2000, Proc. Natl. Acad. Sci. USA 97(25): 13726--13731
        Genome-wide study of aging and oxidative stress response in Drosophila melanogaster. [FBrf0131436]
        Supplementary material
        Giot et al., 2003, Science 302(5651):
        Tables S1 to S7. [FBrf0166452]
        Oh et al., 2003, Genetics 163(1):
        Table S1. [FBrf0157097]
        Review
        Inohara, 2002, Trends Biochem. Sci. 28(5): 219--221
        [title not yet available] [FBrf0182963]
        Personal communication to FlyBase
        Dickson et al., 2007.7.18, RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center
        RNAi construct and insertion data submitted by the Vienna Drosophila RNAi Center [FBrf0200327]
        Rana, 2004.7.8, BLAST analysis.
        BLAST analysis. [FBrf0178762]
        Ryder, 2004.4.26, Exelixis CG deletion data.
        Exelixis CG deletion data. [FBrf0184335]
        Abstract
        Huang et al., 2006, A. Dros. Res. Conf. 47: 827A
        Drosophila models of Niemann-Pick type C disease: the link between sterol homeostasis and ecdysone biosynthesis. [FBrf0188922]
        Huang and Scott, 2004, A. Dros. Res. Conf. 45: 718A
        Studying Niemann-Pick Type C disease genes in Drosophila. [FBrf0173478]
        FlyBase analysis
        FlyBase, 1996-, FlyBase inference based on genome sequence analysis.
        FlyBase inference based on genome sequence analysis. [FBrf0104946]
        FlyBase, 1992-, FlyBase curation
        FlyBase curation. [FBrf0105495]
        Protein sequence record
        Swiss-Prot Project Members, 2000.10.1, UniProtKB: Q9VQ62
        HYPOTHETICAL PROTEIN CG7291 PRECURSOR. [FBrf0136589]
        Computer file
        Gene Disruption Project members, 2001-, [title not yet available]
        [title not yet available] [FBrf0132177]
        BDGP Project Members, 2000-, Berkeley Drosophila Genome Project.
        Berkeley Drosophila Genome Project. [FBrf0125078]
        Curated genome annotation
        Kodira, 1999.11, [Annotations performed at the Celera Jamboreee.]
        [Annotations performed at the Celera Jamboreee.] [FBrf0126678]